Variant report

Variant	rs10220379
Chromosome Location	chr14:71410805-71410806
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	YY1	chr14:71410597-71410900	GM12892	blood:	n/a	n/a
2	CTCF	chr14:71410720-71410870	HEK293	kidney:	n/a	n/a
3	TCF12	chr14:71410612-71410851	GM12878	blood:	n/a	n/a
4	KAP1	chr14:71410433-71410965	HEK293	kidney:	n/a	n/a
5	SETDB1	chr14:71410215-71411220	U2OS	brain:	n/a	n/a
6	CBX3	chr14:71410504-71410936	HCT-116	colon:	n/a	n/a
7	ZNF143	chr14:71410585-71410909	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
PCNX	TF binding region

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10137675	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10142792	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs10148633	0.80[AMR][1000 genomes]
rs10483835	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11847244	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12432180	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12432587	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12433409	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12435253	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12880918	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12881674	0.89[CHB][hapmap]
rs12891445	0.88[ASN][1000 genomes]
rs12893528	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12895177	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12896855	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1468469	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17093729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17108711	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs17108730	0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17108753	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs17108755	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17108869	0.90[ASN][1000 genomes]
rs17108873	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17108897	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17109008	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2051865	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2158537	0.86[AMR][1000 genomes]
rs2158998	0.88[ASN][1000 genomes]
rs2286312	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2286314	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2526891	0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs34119685	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34740221	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs34785361	0.92[ASN][1000 genomes]
rs34968850	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34971726	0.88[ASN][1000 genomes]
rs34998980	0.92[ASN][1000 genomes]
rs35041597	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs35092982	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs35127721	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35168506	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs35523654	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs35714454	0.85[ASN][1000 genomes]
rs35725944	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs36089307	0.86[ASN][1000 genomes]
rs4488390	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4902872	0.88[ASN][1000 genomes]
rs4902873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4902874	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4902877	0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4902878	0.83[ASN][1000 genomes]
rs4902884	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs61990447	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs71425229	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs71425386	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7146777	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7147788	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs7148530	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7152435	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7158548	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73297555	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7492431	1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8015773	0.85[ASN][1000 genomes]
rs917066	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs987579	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041980	chr14:71196358-71767339	Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv542125	chr14:71196358-71767339	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1035416	chr14:71212882-71623271	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv542126	chr14:71212882-71623271	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv1049741	chr14:71233043-71462509	Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv1037839	chr14:71263886-71625114	Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv542127	chr14:71263886-71625114	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
8	nsv1038007	chr14:71269747-71667680	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
9	nsv1039769	chr14:71310954-71525720	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv542128	chr14:71310954-71525720	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv565043	chr14:71395604-71625112	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:71401000-71443800	Weak transcription	Right Ventricle	heart
2	chr14:71402200-71412400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr14:71402200-71413600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr14:71402200-71413600	Weak transcription	Osteobl	bone
5	chr14:71402200-71442800	Weak transcription	HSMMtube	muscle
6	chr14:71402400-71413600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr14:71402400-71413600	Weak transcription	Fetal Kidney	kidney
8	chr14:71402400-71414400	Weak transcription	Colon Smooth Muscle	Colon
9	chr14:71402600-71413800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr14:71406000-71413800	Weak transcription	Stomach Smooth Muscle	stomach
11	chr14:71407200-71413600	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr14:71408200-71412800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
13	chr14:71408400-71411200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
14	chr14:71408400-71411800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr14:71408400-71412800	ZNF genes & repeats	Fetal Intestine Small	intestine
16	chr14:71408400-71415200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr14:71408400-71416800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
18	chr14:71408600-71412000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr14:71408600-71414800	ZNF genes & repeats	Dnd41	blood
20	chr14:71408600-71415000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr14:71408600-71417000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr14:71408800-71411200	ZNF genes & repeats	Primary T cells from cord blood	blood
23	chr14:71408800-71411600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
24	chr14:71408800-71412000	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr14:71409000-71411000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
26	chr14:71409000-71413000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
27	chr14:71409000-71415000	ZNF genes & repeats	Primary B cells from cord blood	blood
28	chr14:71409200-71411000	Strong transcription	Primary neutrophils fromperipheralblood	blood
29	chr14:71409200-71415000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
30	chr14:71409200-71415200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
31	chr14:71409200-71416600	ZNF genes & repeats	GM12878-XiMat	blood
32	chr14:71409200-71417200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
33	chr14:71409400-71411600	ZNF genes & repeats	Fetal Muscle Leg	muscle
34	chr14:71410000-71411000	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr14:71410000-71412600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
36	chr14:71410200-71411000	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr14:71410200-71411000	ZNF genes & repeats	Fetal Lung	lung
38	chr14:71410200-71411600	ZNF genes & repeats	Duodenum Mucosa	Duodenum
39	chr14:71410200-71411600	ZNF genes & repeats	HepG2	liver
40	chr14:71410200-71412000	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
41	chr14:71410200-71412000	ZNF genes & repeats	Fetal Brain Female	brain
42	chr14:71410200-71412000	ZNF genes & repeats	Fetal Stomach	stomach
43	chr14:71410200-71412200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
44	chr14:71410200-71412600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
45	chr14:71410400-71411000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
46	chr14:71410400-71411000	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr14:71410400-71411000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr14:71410400-71411000	ZNF genes & repeats	Aorta	Aorta
49	chr14:71410400-71411000	ZNF genes & repeats	Liver	Liver
50	chr14:71410400-71411000	ZNF genes & repeats	Esophagus	oesophagus

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